Fig. 4

Putative role of lamin B1 as an architectural protein. a A/B compartment dynamics. Scatterplots of PC1 values indicate compartment changes between untreated cells and cells treated with TGF-β for 8 or 24 h. Dots indicate 100 Kb bins that changed compartment with respect to untreated cells (from B to A, in orange; from A to B, in cyan). Numbers indicate the total bins that changed compartment. b Contingency table analysis for enriched and depleted features according to distinct genome architectural landmarks. Red to blue color indicate positive to negative log odds of the feature in genomic bins assigned to A or B compartment, or TAD borders. All log odds are statistically different than zero (p < 0.05, Fisher’s exact t-test). c TAD border dynamics. Bar plot of normalized border strength for conserved borders in untreated cells (blue) or those treated with TGF-β for 8 h (orange) or 24 h (red) (left). Expression of genes within TAD borders in which lamin B1 increased (computed in FPKM) in untreated cells or those treated with TGF-β for 8 or 24 h (right). d Border occupancy by lamin B1 in conserved TADs. Pie charts of 1, 2, or ≥ 3 called peaks (dark to light color) of lamin B1 ChIP-seq in a conserved border